top of page
mmu_circAcad11_380
Basic information of circular RNA
PanCircBase ID:
mmu_circAcad11_380
mm39_Chr. Position ID:
chr9|103990660|103993518|+
Gene name:
Acad11
Transcript:
ENSMUST00000120854.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
4
Exon/intron indexes:
14,15,16,17
Exon/intron offsets:
0,991,1816,2703
Genomic length:
2858
Exon/intron sizes in nt:
67,86,72,155
Flanking exon/introns:
chr9:103974651-103990660|chr9:103993518-104000245
Splice length:
380
Other database IDs:
CIRCpedia: MMU_CIRCpedia_40152, circAtlas: mmu-Acad11_0002
circBase: hsa_circ_0121942, circAtlas: hsa-NPHP3-ACAD11_0040, CIRCpedia: HSA_CIRCpedia_43580
Human Ortholog IDs:
Mature spliced Sequence:
GAGCTGGGAATCCCAAGTGCAAAATCGCCATTGTTTTGGGAAGAACGGAGTCTCCCTCTGCATCCAGACACAGACAGCACAGCATGATCCTCGTGCCGATGGACACACCTGGAGTGGAGTTAATAAGGCCTTTGTCGGTGTTCGGCTACATGGATAATATGCATGGCGGGCACTGGGAGGTCCATTTCAATCACGTGCGCGTTCCTGCCAGCAACTTAATACTAGGTGAAGGCAGGGGCTTTGAAATTTCCCAAGGCCGCCTTGGACCTGGAAGAATCCACCACTGTATGAGAACCGTGGGTTTGGCAGAACGCATTCTGCAGATCATGTGTGACCGGGCCGTGCAGAGGGAGGCCTTCAAGAAGAAGCTCTACGAACAT
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTTTGGCAGAACGCATTC
60.39
TGTCTGGATGCAGAGGGAGA
59.96
152
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
GGGTTTGGCAGAACGCATTC
60.39
TCATGCTGTGCTGTCTGTGT
59.89
169
PCR template sequence:
CCACTGTATGAGAACCGTGGGTTTGGCAGAACGCATTCTGCAGATCATGTGTGACCGGGCCGTGCAGAGGGAGGCCTTCAAGAAGAAGCTCTACGAACATGAGCTGGGAATCCCAAGTGCAAAATCGCCATTGTTTTGGGAAGAACGGAGTCTCCCTCTGCATCCAGACACAGACAGCACAGCATGATCCTCGTGCCGAT
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-298-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GCTCTACGAACATGAGCTGGGAATCC
siRNA sets
NA
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCACAD11_380_ORF_1
0.8809
0.194286554
0.485676088
384
ORF sequence:
ATGATCCTCGTGCCGATGGACACACCTGGAGTGGAGTTAATAAGGCCTTTGTCGGTGTTCGGCTACATGGATAATATGCATGGCGGGCACTGGGAGGTCCATTTCAATCACGTGCGCGTTCCTGCCAGCAACTTAATACTAGGTGAAGGCAGGGGCTTTGAAATTTCCCAAGGCCGCCTTGGACCTGGAAGAATCCACCACTGTATGAGAACCGTGGGTTTGGCAGAACGCATTCTGCAGATCATGTGTGACCGGGCCGTGCAGAGGGAGGCCTTCAAGAAGAAGCTCTACGAACATGAGCTGGGAATCCCAAGTGCAAAATCGCCATTGTTTTGGGAAGAACGGAGTCTCCCTCTGCATCCAGACACAGACAGCACAGCATGA
Peptide sequence:
MILVPMDTPGVELIRPLSVFGYMDNMHGGHWEVHFNHVRVPASNLILGEGRGFEISQGRLGPGRIHHCMRTVGLAERILQIMCDRAVQREAFKKKLYEHELGIPSAKSPLFWEERSLPLHPDTDSTA
IRESfinder result
IRESfinder score
0.40132215
IRES/non IRES
non-IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
bottom of page